# Keaddata output is empty

**URL:** <https://forum.biobakery.org/t/keaddata-output-is-empty/4911>\
**Category:** KneadData\
**Created:** [March 3, 2023, 7:44pm UTC](https://forum.biobakery.org/t/keaddata-output-is-empty/4911 "2023-03-03T19:44:35Z")\
**Posts on this page:** 1\
**Page:** 1

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**Author:** ![javadsadeghi](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/javadsadeghi/32/2130_2.png) [@javadsadeghi](https://forum.biobakery.org/u/javadsadeghi)\
**Post date:** [March 3, 2023, 7:44pm UTC](https://forum.biobakery.org/t/keaddata-output-is-empty/4911/1 "2023-03-03T19:44:35Z")

</div>

Hello,

I am trying to use the Kneaddata to remove the host mRNA (fish) and keep the microorganisms mRNA. However, after running the Kneadata the output is empty. Here is the log file. I used these sequences for host gene expression and everything worked well (with host reference and bowtie, etc.) but in here it looks like it is an alignment issue.

[67A\_R1\_kneaddata.txt](https://forum.biobakery.org/uploads/short-url/gt2FIQ5OiPd7CbrK8WNLYW7Wdxb.txt) (28.9 KB)